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使用2bRAD-M在没有宿主耗尽的情况下对富含宿主样本的高分辨率微生物组分析

Yuesong Jiang¹, Jiang Liu², Yufeng Zhang¹

¹Faculty of Dentistry, The University of Hong Kong, Hong Kong SAR, China.

NPJ biofilms and microbiomes

|November 28, 2025

概括

一种新的方法,2bRAD-M,在具有高宿主DNA的样本中有效地分析人类微生物群. 这种减少的测序方法绕过了宿主DNA的枯竭,为微生物组研究提供了一个实际的解决方案.

科学领域:

微生物学微生物学
基因组学就是基因组学.
生物信息学是一种生物信息学.

背景情况:

描述人类微生物群对于理解宿主-微生物相互作用至关重要.
高宿主DNA上下文 (HoC) 在分析宿主占主导地位的样本方面提出了重大挑战.
现有的宿主DNA枯竭方法遭受DNA损失,需要立即处理样本.

研究的目的:

引入2bRAD-M,一种简化的元基因组测序方法,用于高效的宿主微生物分析.
为了使微生物组在没有先前宿主DNA耗尽的情况下进行分析.
为具有高宿主DNA背景的样品提供实用和有效的解决方案.

主要方法:

开发和验证2bRAD-M,一种减少的元基因组测序技术.
应用2bRAD-M对具有>90%人类DNA的模拟样本.
在唾液和口腔癌样本上对2bRAD-M与全元基因组测序 (WMS) 的比较分析.
使用2bRAD-M在儿童早期 (ECC) 研究中.

主要成果:

2bRAD-M在模拟样本上实现了AUPR和L2相似性的93%以上.
2bRAD-M概况与唾液和口腔癌样本中的WMS概况非常相匹配.
在唾液样本中,2bRAD-M仅使用5-10%的测序力度捕获了白天和宿主特定的模式.
2bRAD-M在一项ECC研究中确定了关键细菌指标,区分ECC与健康受试者,AUC为0.92.

结论:

2bRAD-M提供了高分辨率的微生物形状,而不需要对宿主DNA进行耗尽.
该方法在宿主主导的样本中得到了有效性和准确性的验证.
2bRAD-M为微生物组研究提供了一种实用且具有成本效益的替代方案,这种研究受到高宿主DNA的挑战.

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